| # | biogem | description | by | cite | version | released | issues | source | build status | 7d | 90d*) | 7d | 90d**) | |
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Bioinformatics library
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8 months
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Biogem is a software generator for Ruby in bioinformatics
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4 weeks
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Binder of samtools for Ruby, on the top of ffi
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5 weeks
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Gff3 parser for big data
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9 months
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The Ruby ucsc api: accessing the ucsc genome database using Ruby
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10 weeks
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Webservice client library for intermine data-warehouses
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4 months
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This is a development release
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2 years
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Log4r wrapper with extra features for roles and sane error handling
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6 weeks
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Library for visualizing genomic regions
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4 years
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BioRuby assembly plugin
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16 months
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Genome scaffolding for human beings
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9 months
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Lightweight Ruby api for ncbi eutils
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12 months
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Api to ensembl databases
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17 months
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Very fast blast xml parser and library for big data
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9 months
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A BioRuby plugin for calculating the isoelectric point and the charge of a protein sequence
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11 weeks
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Pipeline to remove contaminations from est libraries
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5 months
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A tool to classify and manipulate pfemp1 dbl-alpha sequence tags
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2 months
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Geneexpression illuminahumanannotation
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16 months
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Ruby binding for bwa mapping software
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13 months
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A BioRuby plugin: handling genomic interavals and overlaps
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13 months
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BioRuby plugin for reading and writing nexml (http://nexml.org)
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1 week
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Running and parsing of the protein transmembrane domain predictor octopus
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12 months
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Support for multiple sequence alignments (msa)
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9 weeks
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A plugin that allows you to parse large blast xml output files lazily, reading only what you need
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11 months
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A fast parser for fastq files
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3 weeks
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A BioRuby plugin for interaction with the transmembrane predictor tmhmm
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2 weeks
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Low memory sequence emitters
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3 months
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A wrapper for the signal peptide prediction algorith signalp
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6 weeks
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Does high pairwise alignment of sequencing reads with a template
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2 years
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BioRuby core plugins, most and stable plugins. blastxmlparser, bwa, samtools
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8 months
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Hello world plugin for the BioRuby (just for fun :-)
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16 months
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BioRuby plugin for sun grid engine
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17 months
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Parse affymetrix cel/cdf files
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5 months
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Implementation of the plasmoap algorithm
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4 months
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Programmatic interface to the cnls nuclear localisation signal prediction software
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1 week
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Enables the localisation predictor wolf psort to be run locally
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4 months
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A method to get the nucleotide sequence of translations done by the emboss bioinformatics package program transeq
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13 months
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Restriction enzyme dataset
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8 months
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Digests dna based on restriction enzyme cut patterns
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8 months
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BioRuby core ext: plugins which require external library or tools so are not pure Ruby plugins
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8 months
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Biological extensions for the intermine webservice client library
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9 months
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Meta package for biolinux distribution
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7 months
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One-line summary of your gem
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6 months
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Decoding the dbsnp bitfield
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6 months
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A Ruby api to the ensembl database
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5 months
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A simple biogem that allows computation of the aliphatic index of a protein
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3 months
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Hydropathy scale for BioRuby
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3 months
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Wrapper around the exportpred algorithm for predicting p. falciparum exported proteins
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4 months
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Next-generation mapping of mutations
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8 weeks
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(...)
pre
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Ruby binding for samtools tabix
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new
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1 week
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Bioinformatics triple-store support
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2 weeks
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Iterate through a samtools pileup file
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new
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2 days
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(...)
pre
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Bio-gag is a biogem for detecting and correcting a particular type of error that occurs/occurred in particular versions of the iontorrent dna sequencing kit
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new
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2 days
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Enables parsing of hmmer version 3 reports
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new
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1 day
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Parse pfam hmm definition files
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new
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1 day
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*) gem downloads (dl total & dl last 90 days) from
rubygems.org
as of
2012-05-19
**) number of commits on GitHub (last 7 days & last 90 days)
**) number of commits on GitHub (last 7 days & last 90 days)
2012-05-18
2012-05-18
2012-05-17
2012-05-17
2012-05-13
2012-05-12
2012-05-09
2012-05-07
2012-05-06
2012-05-06
2012-05-04
2012-05-04
2012-05-03
2012-05-01
2012-05-01
2012-04-27
2012-04-26
2012-04-25
2012-04-21
2012-04-18
2012-04-14
2012-04-10
2012-04-10
2012-04-04
2012-04-02
2012-03-19
2012-03-17